RnoINT0036337 @ rn6
Intron Retention
Gene
ENSRNOG00000012448 | Chrnb3
Description
cholinergic receptor nicotinic beta 3 subunit [Source:RGD Symbol;Acc:621544]
Coordinates
chr16:68875709-68881100:-
Coord C1 exon
chr16:68880218-68881100
Coord A exon
chr16:68877642-68880217
Coord C2 exon
chr16:68875709-68877641
Length
2576 bp
Sequences
Splice sites
5' ss Seq
CAGGTGAGT
5' ss Score
10.67
3' ss Seq
CGACTTTTTCTCTTTTGCAGGTA
3' ss Score
12.73
Exon sequences
Seq C1 exon
TGCTGACGGACGTTTTGAGGGCTCCCTCATGACCAAGGCCATTGTGAAGTCCAGTGGAACCGTCAGCTGGACTCCTCCCGCCAGCTACAAGAGTTCCTGCACCATGGATGTCACATTTTTCCCGTTCGACAGGCAGAACTGCTCGATGAAGTTTGGATCCTGGACTTACGACGGTACCATGGTTGACCTCATTCTAATCAATGAAAACGTTGACCGGAAAGACTTTTTTGATAACGGAGAGTGGGAGATACTCAACGCAAAGGGGATGAAGGGCAACAGAAGAGAAGGCTTTTACTCCTATCCGTTTGTTACCTACTCTTTTGTCCTGAGACGCCTGCCCTTGTTTTACACGCTCTTTTTGATAATCCCCTGCCTGGGGTTGTCTTTTCTCACGGTCCTGGTGTTCTACCTACCCTCGGACGAAGGGGAAAAACTCTCATTATCCACCTCCGTTTTGGTCTCTTTGACGGTGTTTCTTTTAGTGATTGAAGAAATAATCCCGTCCTCTTCGAAGGTCATCCCCCTCATTGGCGAGTACCTCCTCTTCATTATGATTTTTGTCACGCTGTCTATTATCGTCACGGTTTTTGTAATTAATGTCCACCACAGATCTTCCTCAACGTACCATCCCATGGCCCCCTGGGTGAAGAGGCTGTTTCTACAAAGACTCCCGAGATGGCTTTGCATGAAGGACCCCATGGACCGCTTCTCTTTCCCGGATGGAAAGGAGAGTGATACAGCCGTGAGGGGGAAAGTCTCAGGCAAAAGGAAACAGACTCCCGCCAGCGATGGAGAAAGAGTTCTGGTCGCTTTCCTCGAGAAGGCCTCCGAGTCCATCAGATACATTTCGAGGCATGTGAAAAAGGAACACTTCATCAGCCAG
Seq A exon
GTGAGTGTGCCGGGAGGTGATAGGGCTGTGTAACCGAGGCGTGCACAGGAAAGCCATGGTGGTGTGCGTTACCACAGAATGTGGTCCTTGTGAACAACCGCACTGCCAGCTATTCTCTGCAAACAAACCACATAGAACAAGCCTGGCAAATCAGAGGAATTTTAGCGTTAAACTTTTTTTTTTTAAAAAAAGATTTATTTATTTTATTTATATGAGTACACGGTCTCTGTCTTCAGACACACCAGAAGAGGGCATCAGATCTCATTGCTGATGGTTGTAAACCACCATGTGGTTGCTGGGATTTGAACTCAGGACCTTTGGAAGAGCAGCCAGTGCTCTTAACCACTGAGCCATCTCTCCAGCCCAGCGTTAAACTTTTTTTTTTTTTTTTTTCTGGAGCTGGGGACCGAACCCAGGGCCTTGTGGTTGCTAGGCAAGCGCTCTACCACTGAGCCAAATCCCCAACCCTCCAGCGTTAAACTTTTAAAGAAAAAGTTTCACAAAAGTACAGTGACTAAACACAAGCCGGTGCAGGCTCAGCACTGCTCATCATAACGCCTCAATTCCTTTTTCAAGAACTCAATTACACCTTTAAATAGGTTACCCTGGTCTGTGATAATTTCACTTCTTCACGTCATGATGTTTTTAAACCCGGTGTTTAGAAATGTGTTTAGTGACTAGAAAGAATCAAACTTTGAAAAGTAATATAAATTTAGTCGTAACAGATACGCCACTGAGGGAAAAGGATCCGGTTACATAGTGTACACATTGTAGAAAACAAGGAGAAGCTGGGCCAGTGCATCCTGGGATCCTGGCTACTCAGGAAGCTGGGAATGTCAGCAATTTGAGATCAACATGGTTCACAGATCGAGAGCTTGTCTCAAAACCGGAAATGCCTAAGATTTAGAGGCACCGCAGTTCTGAGGGCAAACCCATGCTATTTCATGCAACATGCTGCCTTGCCAGAAGTTTGTTTTTCTGGAGTTTACCTTGAAGAACAGAGACGAGGAATCCCTGACAGAGCAGCCTTTCTCTTCACACCGCCTGCAGACAGGGCTAAGTCATTTTACTGGAAAACTTCTTGGAAATTAGTCTAAGGGATTTCAGGCTTATGAAAGCGTTTCTGGAAGCACACTTTACATTTTACTGTGTCTTCCGCGGAGGTTAGGCCTGGTTTATCTTTCTCTTGTAACTGTTTATCATATTTTTCATAAAATTGCAGATTTTGATTGAAAAGAGACTAAAAAAATCAGCTCATACAGGGATAAATCAGCTATCAGGGAAGGAATTTGTTTTATTTCTTTACATCTTTTATAAATACCAATATAAACACTTAAGTGGGTTTTTTTTTAATATGACCAGGACACAAAACTTGGAAAACTCAAAGACATGAGGATCACAGCCATTAAGAACCCCGTTACCTGAGGGATTACTAATTGCTACAATAAAATGCTAATTTTAACAAATTACTCTATCTTGCTTATGTGAGTTATGCCACAGTTTTGTTTGTAGACTTGGAAACCTTAGAACAGCATGCCCCTCCCTCCTGTGAGTAGGCAGTCATCTCGTTCTGTTCTGTCCCATCTTTACTAAATCCTTATTTACAGGCACTGCAGTTGAAAATACTGATCAAAGTACCTGACTGTTTAGCAGTTCCCTATACAGTGTTTTGGTTTCCCCTGGCAAGCTATCATGAGGCTCAGGGGGATCTGCTACTCAGTAAGGCTGCGGGATTCCCAGGAAGATGGTACTGTGTGTCCCTAGATTACAGAAGGTACTCTCCTCCCTCCATCAGCATCCCACTCCTTCCCTGTCTTTCAAGATCTGGAGTGGTTCCCATTGAGTGTGTTTCCTTTCTTATGGTTATACATTGAAACTTTCTGTGAAACTGCTGTAAGCTTCAGACTCTGGTGCAGAAACCCGACTCTGTCCCTTGAAAAGTGAGCTTCCGTTCTTTTGCAGATTTCCCCAGCTCGTTACTTCCTGGACCTGCTGCTGCAGGCTGGTACCCATTCTCCTGCAGTGTTTCTGCCTAACTAAAGAATCCACAGACCCCTGTCATTCCTTCTCAGTGCTGTCTTCCGGATCTCTAGGAGCCACACCCACTTGAGGAGTAGGAGGGAAATCCTATGACACTTAATTACAAATGCTTTAAAGACATCAGTTTGTTGAGAGGCGGGCAATAATGCTGGACTGTAAAAAAATAAAAGTAAGAAAAAAAAAGACATCAGTTTGTGATTGGTTTTATAGGTGTACAAGGAAGCATTGTATAAAAATAGAATCAGGTTTTTTTTATTTGTGTTTGACCAGCATATCTCCAGATATCCAAATAATTCTGGAGTTTCTGTTTTACATCTTCACTGTTGAGAAATGTTCCTAAACATGCACCTTGCAAGCTATTTCTTGCGGTGCGATGGATAACCTCACCGGATAGACTCCAAGCTCCCGCCATCAGTGATGTGTAGATACATTTTGAAACTGAAGTGTCCTAAATCAAATATTGCTCTATTAGCAACCTTACTGAGTTCAGAAAGGCTGCTCAGCCTCTTGAATGAACGACTTTTTCTCTTTTGCAG
Seq C2 exon
GTAGTGCAAGACTGGAAATTTGTGGCTCAAGTTCTGGACCGCATCTTCCTGTGGCTCTTTCTGATAGCTTCTGTGTTGGGTTCCATTCTGATTTTTATTCCAGCCTTGAAGATGTGGATACATCGTTTCCACTAGGAGCCACTCTCTGGACCCATTTAGAAGACATACATAGAGACAATCCCACCTTAGGACTGACAGCGGCTGGCATGCTGACAGGAAGCAGAGCCATGCAATCGTAGTGGTGCCCTTGTCTTGTCCTGGGAGCTTTCTGTGATTGCAGGGCACTGAGAGAATGTGGGTTTGAGTTAGTGAGATGGTGGCTGCCATTAGAGGTGTAGTTGGGCAATTTGGAGACGTCTCCATGTTATATTGTTATGTGGGAGTTCCTGAACTACTCCCTCTGCTCATCCCTGAACGCACTGGGGCTATGTGGTATTTCTCTAGCAGTGTGCGTGAACGCATTTTGACAATAGTTTCAGGAATTACGCAGGTACAACTCTCCACACACAGGTCAAATTTGCCACTTGTCAACGAGTGTCCCACAAATAGGGTCATTGAAGATGACCTTGAATGGCTATGACAGTTCTCTAAGGCAGGTGTTACTGGAAGTTTGCTCACTGACCTGCGAACTTTTCGAATGCAGGTAGGAACTCGGGTGATTTCTAGCTTGCTGTAAGGTTCCATCAAAATAACTTACCCCAGAAAAACAGCCATTCGCTAGTAGAACTGTATTTATTCACACACATCTCTTTTTTTTCTCTTAGGGAATTAAAAGTGTTGAATATTCTTTGATTGTGGTTTTGGAAGGCCTCTTAGCCAGTGTTCTATTACTGTGAAGAGATACCATGACCATGGCAAAAAGATCAGAGGTTTAGTCCACTTTCATTACAGTGGGAAGCATGGTGCCGCTCGGCAGATACGGTGCTAGACATGTACATCTGGATCTGCAGGCAGCAGGAAGAGAGAGACTGGCCTGGGTTTTTGAAATCCCAAAGCACATCCCCAGTGACACACTTCATCCAGCAAAACTCCACCTCTAGGTCCTTCTCAAGTAGTGCCAAGCCCTGATGACTAAGTACTAGGATACAGGAACCTAGGGGGGCCATCCCTATTCGAGCCATTTCAGATAGAACTGGTTTTCACAGAGTCATCTGCCTTCGCCTTCCTCTCCCTGTGTCTCCCTCCTTTCCACATCTCACCTCATGCTCCTCCAGGACTGTCAGGGAGTGTCTATCAGATTGACTTTGCTGCTGCTGCTATTGAGTCTTTCCTGGGTTTTGTTAAAGGAGTTTGTTCCTTCACATTGGTGAAGCCCTGCACTCTGTTTTATTTCAGACATGGTTCTTCTAAGCAGTTTATCCCTGAGATTTTAAAAACCCTAGTCTAAGGTTTTATTTTTAGATTATTATCACTGCATACATACAGTAAGTAATTTTTTTCTTCCAAAACCGCTTAAGCTTTTATCATCTTCAGTCTTAGAAATGTCATACCGTGTCTAAGAGAATGACATCCATCCATCTTTATTTCTGTTATCTCTCCACCCTCCCCTTCCCCTCTCCTTTCTTTCCATCTCCTCTCTCTGCACTTGATGACTAATGTCTTCAAACTCTGCAGAGCTCTCCTATTTCTTTTACCATTTCTGTTCTCCATTTTCTCTCTTTGCCTCTTAAAGTTTCTGTTAAAACTTCTTGTCATTGCTGGGCCCATTCTCCATGTTTATTAACTAATTGGTTGACTCCTCTTCTTTCATACTTTTAAATTCTTTAATGATATTTTCTTAATTCTTTGACAATTATGAACAACATATTTTGATCCTATTTATCCCGAATGCGTCCCCTGTAACTTCTTCTAGACCTATTCCCTCACCCTATCCCCCAACATCTGGTCCTAATTAATTAATTAATTAATTATTAATAAATGTGCTGCATGCATA
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000012448:ENSRNOT00000016656:5
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.027 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0293118=Neur_chan_LBD=PD(55.1=38.3),PF0293211=Neur_chan_memb=WD(100=42.4),PF0293211=Neur_chan_memb=PU(62.1=18.3)
A:
NA
C2:
PF0293211=Neur_chan_memb=PD(35.6=68.9)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Mouse
(mm9)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
No suggested primer sequences
R:
No suggested primer sequences
Band lengths:
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]